BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= psy16526
         (422 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1WVG|A Chain A, Structure Of Cdp-D-Glucose 4,6-Dehydratase From Salmonella
           Typhi
 pdb|1WVG|B Chain B, Structure Of Cdp-D-Glucose 4,6-Dehydratase From Salmonella
           Typhi
          Length = 359

 Score = 35.8 bits (81), Expect = 0.047,   Method: Compositional matrix adjust.
 Identities = 26/103 (25%), Positives = 56/103 (54%), Gaps = 12/103 (11%)

Query: 311 LGDITEPELGISQNDQK----ILKQNVSVVFHSAAT----VKFDEALKLSVTINMLGTKR 362
           L D+ E  +G  ++ +K    I +    +VFH AA     + +++ +K + + N++GT  
Sbjct: 55  LNDLMESHIGDIRDFEKLRSSIAEFKPEIVFHMAAQPLVRLSYEQPIK-TYSTNVMGTVH 113

Query: 363 LVELCHEMTHLEALIHVSTAYCNCDREEVREIIYSPP---YDP 402
           L+E   ++ +++A++++++  C  +RE V     + P   YDP
Sbjct: 114 LLETVKQVGNIKAVVNITSDKCYDNREWVWGYRENEPMGGYDP 156


>pdb|4DQV|A Chain A, Crystal Structure Of Reductase (R) Domain Of Non-Ribosomal
           Peptide Synthetase From Mycobacterium Tuberculosis
          Length = 478

 Score = 35.4 bits (80), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 44/87 (50%), Gaps = 2/87 (2%)

Query: 296 LRQERSNELAKIKPILGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEALKLSVTI 355
           LR  +     +++ + GD +EP+LG+ Q   + L + V ++  SAA V      +L    
Sbjct: 131 LRHFKELAADRLEVVAGDKSEPDLGLDQPXWRRLAETVDLIVDSAAXVNAFPYHEL-FGP 189

Query: 356 NMLGTKRLVELCHEMTHLEALIHVSTA 382
           N+ GT  L+ +    T L+   +VSTA
Sbjct: 190 NVAGTAELIRIAL-TTKLKPFTYVSTA 215


>pdb|3SC6|A Chain A, 2.65 Angstrom Resolution Crystal Structure Of
           Dtdp-4-Dehydrorhamnose Reductase (Rfbd) From Bacillus
           Anthracis Str. Ames In Complex With Nadp
 pdb|3SC6|B Chain B, 2.65 Angstrom Resolution Crystal Structure Of
           Dtdp-4-Dehydrorhamnose Reductase (Rfbd) From Bacillus
           Anthracis Str. Ames In Complex With Nadp
 pdb|3SC6|C Chain C, 2.65 Angstrom Resolution Crystal Structure Of
           Dtdp-4-Dehydrorhamnose Reductase (Rfbd) From Bacillus
           Anthracis Str. Ames In Complex With Nadp
 pdb|3SC6|D Chain D, 2.65 Angstrom Resolution Crystal Structure Of
           Dtdp-4-Dehydrorhamnose Reductase (Rfbd) From Bacillus
           Anthracis Str. Ames In Complex With Nadp
 pdb|3SC6|E Chain E, 2.65 Angstrom Resolution Crystal Structure Of
           Dtdp-4-Dehydrorhamnose Reductase (Rfbd) From Bacillus
           Anthracis Str. Ames In Complex With Nadp
 pdb|3SC6|F Chain F, 2.65 Angstrom Resolution Crystal Structure Of
           Dtdp-4-Dehydrorhamnose Reductase (Rfbd) From Bacillus
           Anthracis Str. Ames In Complex With Nadp
          Length = 287

 Score = 35.0 bits (79), Expect = 0.074,   Method: Compositional matrix adjust.
 Identities = 40/136 (29%), Positives = 63/136 (46%), Gaps = 15/136 (11%)

Query: 292 LFDQLRQERSNELAKIKPI---LGDITEPELGISQNDQKILKQNVSVVFHSAATVKFDEA 348
           L  QL++E + E   I P    L DIT     ISQ  Q + +    ++ H AA  K D+A
Sbjct: 17  LGKQLQEELNPEEYDIYPFDKKLLDITN----ISQVQQVVQEIRPHIIIHCAAYTKVDQA 72

Query: 349 LK---LSVTINMLGTKRLVELCHEMTHLEALIHVSTAYC-NCDREEVREIIYSPPYDPQK 404
            K   L+  IN +G  R V +  ++   + L+++ST Y    DR E  +  ++P   P  
Sbjct: 73  EKERDLAYVINAIGA-RNVAVASQLVGAK-LVYISTDYVFQGDRPEGYDEFHNPA--PIN 128

Query: 405 IIETMEWMDDSLVNTL 420
           I    ++  +  V  L
Sbjct: 129 IYGASKYAGEQFVKEL 144


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.322    0.136    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,998,639
Number of Sequences: 62578
Number of extensions: 467956
Number of successful extensions: 1024
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1023
Number of HSP's gapped (non-prelim): 3
length of query: 422
length of database: 14,973,337
effective HSP length: 101
effective length of query: 321
effective length of database: 8,652,959
effective search space: 2777599839
effective search space used: 2777599839
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)